BLASTP 2.2.23 [Feb-03-2010]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment:
Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Os04g0346100 Os04g0346100|AK068012
         (86 letters)

Database: rap3 
           52,214 sequences; 17,035,801 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0346100  Ribosomal protein S27                               153   3e-38
Os02g0478700  Ribosomal protein S27                               151   1e-37

>Os04g0346100 Ribosomal protein S27
          Length = 86

 Score =  153 bits (386), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/86 (88%), Positives = 76/86 (88%)

Query: 1  MVLSNDIDLLNPPAXXXXXXXXXXRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG 60
          MVLSNDIDLLNPPA          RLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG
Sbjct: 1  MVLSNDIDLLNPPAELEKLKHKKKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG 60

Query: 61 CQTVLCQPTGGKARLTEGCSFRRKSD 86
          CQTVLCQPTGGKARLTEGCSFRRKSD
Sbjct: 61 CQTVLCQPTGGKARLTEGCSFRRKSD 86



>Os02g0478700 Ribosomal protein S27
          Length = 86

 Score =  151 bits (382), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 75/86 (87%), Positives = 75/86 (87%)

Query: 1  MVLSNDIDLLNPPAXXXXXXXXXXRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG 60
          MVLSNDIDLLNPPA          RLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG
Sbjct: 1  MVLSNDIDLLNPPAELEKLKHKKKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPG 60

Query: 61 CQTVLCQPTGGKARLTEGCSFRRKSD 86
          CQTVLCQPTGGKARLTEGCSFRRK D
Sbjct: 61 CQTVLCQPTGGKARLTEGCSFRRKGD 86



  Database: rap3
    Posted date:  Nov 19, 2010  6:03 PM
  Number of letters in database: 17,035,801
  Number of sequences in database:  52,214
  
Lambda     K      H
   0.325    0.137    0.438 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 2,732,532
Number of extensions: 76924
Number of successful extensions: 141
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 141
Number of HSP's successfully gapped: 2
Length of query: 86
Length of database: 17,035,801
Length adjustment: 56
Effective length of query: 30
Effective length of database: 14,111,817
Effective search space: 423354510
Effective search space used: 423354510
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 149 (62.0 bits)